Publications

Giri-Rachman, Ernawati Arifin, Tan, Marselina Irasonia, Intan, Novia Syari, Fajar, Putri Ayu, Wojciechowska, Gladys Emmanuella Putri, Hertadi, Rukman, Retnoningrum, Debbie Soefie

HAYATI Journal of Biosciences • 31(5): 1007-1018

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OA

Article 2024 5

Designing a Novel Multiepitope Vaccine from the Human Papilloma Virus E1 and E2 Proteins for Indonesia with Immunoinformatics and Molecular Dynamics Approaches

Rizarullah, Aditama, Reza, Giri-Rachman, Ernawati Arifin, Hertadi, Rukman

ACS Omega • 9(14): 16547-16562

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2023

7 publications

OA

Article 2023

Synthesis of pyridinium-based ionic liquids and their application to improve Candida rugosa lipase stability in a methanol-water solvent system

Hendra Cipta, Oktavianus, Alni, Anita, Hertadi, Rukman

Turkish Journal of Chemistry • 47(2): 307-320

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Article 2023 12

Production of poly-(R)-3-hydroxybutyrate from halophilic bacterium Salinivibrio sp. utilizing palm oil mill effluent as a carbon source

Rizki, Wa Ode Sri, Ratnaningsih, Enny, Hertadi, Rukman

Biocatalysis and Agricultural Biotechnology • 47: Art. 102558

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OA

Article 2023 5

Graphene quantum dots functionalised with rhamnolipid produced from bioconversion of palm kernel oil by Pseudomonas stutzeri BK-AB12MT as a photocatalyst

Habibah, Fera Faridatul, Ivansyah, Atthar Luqman, Ivan, Samuel, Hertadi, Rukman

RSC Advances • 13(5): 2949-2962

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Article 2023 13

BiCaps-DBP: Predicting DNA-binding proteins from protein sequences using Bi-LSTM and a 1D-capsule network

Mursalim, Muhammad K.N., Mengko, Tati L.E.R., Hertadi, Rukman, Purwarianti, Ayu, Susanty, Meredita

Computers in Biology and Medicine • 163: Art. 107241

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OA

Article 2023 2

Development of Chimeric Hepatitis B (HBV) – Norovirus (NoV) P particle as candidate vaccine against Hepatitis B and norovirus infection

Giri-Rachman, Ernawati Arifin, Irasonia Tan, Marselina, Ramesh, Ashwin, Fajar, Putri Ayu, Nurul Ilmi, Annisa, Retnoningrum, Debbie Sofie, Hertadi, Rukman, Irawan, Apriliani, Wojciechowska, Gladys Emmanuella Putri, Yuan, Lijuan

Vaccine: X • 14: Art. 100354

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OA

Article 2023 7

EmbedCaps-DBP: Predicting DNA-Binding Proteins Using Protein Sequence Embedding and Capsule Network

Naim, Muhammad Khaerul, Mengko, Tati Rajab, Hertadi, Rukman, Purwarianti, Ayu, Susanty, Meredita

IEEE Access • 11: 121256-121268

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Article 2023 6

Fabrication of physically crosslink Levan-lsbl-bk1/PVA electrospun nanofiber

Abdillah, Bagus Furqan, Nasir, Muhamad, Mozef, Tjandrawati, Hertadi, Rukman

European Polymer Journal • 195: Art. 112237

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2022

5 publications

OA

Article 2022 2

Cloning, Expression, and In Silico Analysis of Class IV Poly-(R)-3hydroxybutyrate Genes from New Strain of Bacillus thuringiensis TH-01

Sabiqoh, Zuhdina, Hertadi, Rukman, Ratnaningsih, Enny

HAYATI Journal of Biosciences • 29(3): 310-319

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Book chapter 2022

Potential Application of Rhamnolipid-Silica Nanoparticle Complex for Enhanced Oil Recovery Studied with Molecular Dynamics Simulations

Fitri, Ika Keumala, Ivansyah, Atthar Luqman, Hertadi, Rukman

Materials Science Forum • 1061: 105-112

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OA

Article 2022 5

Low Complexity Classification of Thermophilic Protein using One Hot Encoding as Protein Representation

Susanty, Meredita, Hertadi, Rukman, Purwarianti, Ayu, Rajab, Tati Latifah Erawati

International Journal of Advanced Computer Science and Applications • 13(12): 84-89

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Conference paper 2022 1

A Review of Extremophile Protein Classification Using Machine Learning

Susanty, Meredita, Rajab, Tati Latifah Erawati, Hertadi, Rukman

Proceeding of 2022 8th International Conference on Wireless and Telematics, ICWT 2022

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Book chapter 2022

In Silico Study on Predicting Effects of H243L Mutation in Bacillus subtilis Levansucrase towards Sucrose Binding Affinity

Sudijanto, Jason Andrew, Hertadi, Rukman

Materials Science Forum • 1061: 119-127

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2021

7 publications

OA

Article 2021 5

Short communication: Ability of ectoine to stabilize lipase against elevated temperatures and methanol concentrations

Parwata, I. Putu, Wahyuningrum, Deana, Suhandono, Sony, Hertadi, Rukman

Indonesian Journal of Chemistry • 21(2): 494-501

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Conference paper 2021

Molecular dynamics study of candida rugosa lipase in water, methanol, and pyridinium based ionic liquids

Cipta, Oktavianus Hendra, Alni, Anita, Hertadi, Rukman

Key Engineering Materials • 874 KEM: 88-95

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OA

Conference paper 2021 1

Molecular docking simulation of interaction between insulin and silica nanoparticle

Hertadi, R., Ivansyah, A.L.

Journal of Physics: Conference Series • 1869(1): Art. 012062

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OA

Conference paper 2021 2

A Review of Protein Structure Prediction using Deep Learning

Susanty, Meredita, Rajab, Tati Erawati, Hertadi, Rukman

BIO Web of Conferences • 41: Art. 04003

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Article 2021 17

Box-wilson design for optimization of in vitro levan production and levan application as antioxidant and antibacterial agents

Hertadi, Rukman, Permatasari, Nur Umriani, Ratnaningsih, Enny

Iranian Biomedical Journal • 25(3): 202-212

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Conference paper 2021 4

Isolation and characterization of poly-(R)-3-hydroxybutyrate produced by bacillus thuringiensis th-01

Rizki, Wa Ode Sri, Sabiqoh, Zuhdina, Ratnaningsih, Enny, Hertadi, Rukman

Key Engineering Materials • 874 KEM: 81-87

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Conference paper 2021

Recombinant expression and biochemical characterization of levansucrase from halophilic bacteria bacillus licheniformis BK1 and BK2

Permatasari, Nur Umriani, Ratnaningsih, Enny, Hertadi, Rukman

Key Engineering Materials • 874 KEM: 96-106

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2020

7 publications

OA

Article 2020 13

The Effects of Microwave-Assisted Pretreatment and Cofermentation on Bioethanol Production from Elephant Grass

Kolo, Sefrinus Maria Dolfi, Wahyuningrum, Deana, Hertadi, Rukman

International Journal of Microbiology • 2020: Art. 6562730

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OA

Article 2020

Effect of calcium ions to the activity and stability of extracellular lipase produced by moderate halophilic bacteria Halomonas meridiana BK-AB4

Nanda, Galo Ayu Megga, Hertadi, Rukman

Malaysian Applied Biology • 49(2): 27-35

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OA

Article 2020 23

Enhancement of antioxidant activity of levan through the formation of nanoparticle systems with metal ions

Hertadi, Rukman, Amari, Muzayana Mahbuba Saleha, Ratnaningsih, Enny

Heliyon • 6(6): Art. e04111

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OA

Article 2020 7

Levan produced by the halophilic bacterium Bacillus licheniformis BK1 as a nanoparticle for protein immobilization

Oktavia, Ira, Fithriah, Aidah Nur, Permatasari, Nur Umriani, Ratnaningsih, Enny, Hertadi, Rukman

Indonesian Journal of Chemistry • 20(3): 493-502

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OA

Article 2020 1

Isolation and characterization of a surfactant-stable protease from halophilic bacteria chromohalobacter japonicus bk-ab18

Achmad, Dwi Isyana, Ihsanawati, Hertadi, Rukman

Malaysian Applied Biology • 49(2): 37-42

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OA

Article 2020 15

Process optimization of palm oil mill effluent-based biosurfactant of Halomonas meridiana BK-AB4 originated from bledug kuwu mud volcano in central java for microbial enhanced oil recovery

Sari, Cut Nanda, Hertadi, Rukman, Harahap, Andre Fahriz Perdana, Ramadhan, Muhammad Yusuf Arya, Gozan, Misri

Processes • 8(6): Art. 716

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Conference paper 2020 5

Prediction of protein tertiary structure using pre-Trained self-supervised learning based on transformer

Kurniawan, Alif, Jatmiko, Wisnu, Hertadi, Rukman, Habibie, Novian

2020 International Workshop on Big Data and Information Security, IWBIS 2020 • 73-78

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2019

7 publications

OA

Article 2019 5

Bioconversion of glycerol to biosurfactant by halophilic bacteria Halomonas elongata BK-AG18

Alvionita, Mieke, Hertadi, Rukman

Indonesian Journal of Chemistry • 19(1): 48-57

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OA

Conference paper 2019 22

Factors Affecting the Production of Biosurfactants and their Applications in Enhanced Oil Recovery (EOR). A Review

Sari, C.N., Hertadi, R., Gozan, M., Roslan, A.M.

IOP Conference Series: Earth and Environmental Science • 353(1): Art. 012048

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Article 2019 12

Production and characterization of rhamnolipids from bioconversion of palm oil mill effluent by the halophilic bacterium Pseudomonas stutzeri BK-AB12

Fazli, Rahmad Rizki, Hertadi, Rukman

Environmental Progress and Sustainable Energy • 38(3): Art. e13007

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Conference paper 2019 4

Processing of ozonized biodiesel waste to produce biosurfactant using Pseudomonas aeruginosa for enhanced oil recovery

Sari, Cut Nanda, Fatimah, Izzah Nur, Hertadi, Rukman, Gozan, Misri

AIP Conference Proceedings • 2085: Art. 020054

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OA

Article 2019 4

Estimating factors determining emulsification capability of surfactant-like peptide with coarse-grained molecular dynamics simulation

Wijaya, Tegar, Hertadi, Rukman

Indonesian Journal of Chemistry • 19(3): 599-605

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OA

Article 2019 25

Heterologous ectoine production in Escherichia coli: Optimization using response surface methodology

Parwata, I Putu, Wahyuningrum, Deana, Suhandono, Sony, Hertadi, Rukman

International Journal of Microbiology • 2019: Art. 5475361

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Conference paper 2019 3

Biosynthesis and characterization of bioplastic polyhydroxybutyrate from halophilic bacterium Halomonas elongata BK-AB8

Rachmawati, Rachmawati, Falahuddin, Wendi, Hertadi, Rukman

Key Engineering Materials • 811 KEM: 28-33

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2018

6 publications

OA

Article 2018 8

Bioconversion of palm oil into biosurfactant by halomonas meridiana BK-AB4 for the application of corrosion inhibitor

Sari, Ira Prima, Basyiruddin, Muhammad Imam, Hertadi, Rukman

Indonesian Journal of Chemistry • 18(4): 718-723

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Article 2018 4

Molecular modeling on porphyrin derivatives as β5 subunit inhibitor of 20S proteasome

Arba, Muhammad, Nur-Hidayat, Andry, Ruslin, Yusuf, Muhammad, Sumarlin, Hertadi, Rukman, Wahyudi, Setyanto Tri, Surantaadmaja, Slamet Ibrahim, Tjahjono, Daryono H.

Computational Biology and Chemistry • 74: 230-238

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OA

Conference paper 2018 7

The use of response surface method in optimization of levan production by heterologous expressed levansucrase from halophilic bacteria bacillus licheniformis BK2

Permatasari, N.U., Ratnaningsih, E., Hertadi, R.

IOP Conference Series: Earth and Environmental Science • 209(1): Art. 012015

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OA

Conference paper 2018 12

Optimization of rhamnolipid production from bioconversion of palm oil mill effluent (POME) waste by Pseudomonas stutzeri BK-AB12 using response surface methodology

Fazli, Rahmad Rizki, Hertadi, Rukman

IOP Conference Series: Earth and Environmental Science • 209(1): Art. 012024

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OA

Conference paper 2018 12

Production of ectoine by Halomonas elongata BK-AG25 using osmotic shock technique

Putu Parwata, I., Wahyuningrum, Deana, Suhandono, Sony, Hertadi, Rukman

IOP Conference Series: Earth and Environmental Science • 209(1): Art. 012017

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OA

Conference paper 2018

In Silico Study of Phospholipids as An Oral Insulin Delivery System

Fuadah, Nanik Rahmawati, Hertadi, Rukman

Journal of Physics: Conference Series • 1090(1): Art. 012053

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2017

3 publications

Article 2017

Exploring levan-producing bacteria chromohalobacter japonicus bk-Ab 18 for biobeneficiation of bauxite through the investigation of its levansucrase properties

Hertadi, Rukman, Nasir, Daris Qodarisman, Mufti, Nandang

Asian Journal of Microbiology, Biotechnology and Environmental Sciences • 19(3): 551-559

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Article 2017 4

Polyhydroxybutyrate (PHB) production by Halomonas elongata BK AG 18 indigenous from salty mud crater at central Java Indonesia

Hertadi, Rukman, Kurnia, Kurnia, Falahudin, Wendy, Puspasari, Made

Malaysian Journal of Microbiology • 13(1): 26-32

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OA

Article 2017 6

Determination of activities of human carbonic anhydrase ii inhibitors from curcumin analogs

Aditama, Reza, Eryanti, Yum, Mujahidin, Didin, Syah, Yana Maolana, Hertadi, Rukman

Tropical Journal of Pharmaceutical Research • 16(4): 849-854

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2015

4 publications

OA

Article 2015 4

Cloning and sequence analysis of lipase gene of halophilic bacteria isolated from mud crater of Bledug Kuwu, Central Java, Indonesia

Asyari, Mukhammad, Aditiawati, Pingkan, Akhmaloka, Hertadi, Rukman

Biosciences Biotechnology Research Asia • 12(3): 1903-1912

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OA

Conference paper 2015 7

Metabolic regulation and maximal reaction optimization in the central metabolism of a yeast cell

Kasbawati, Gunawan, A.Y., Hertadi, R., Sidarto, K.A.

AIP Conference Proceedings • 1651: 75-85

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Conference paper 2015 4

A new strategy of glucose supply in a microbial fermentation model

Kasbawati, Gunawan, A.Y., Sidarto, K.A., Hertadi, R.

AIP Conference Proceedings • 1677: Art. 030015

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Article 2015 5

Determination of the reactivity of the anti-cancer nitrogen mustard-mechlorethamine: A cyclic voltammetric investigation

Setiyanto, Henry, Saraswaty, Vienna, Hertadi, Rukman, Buchari, Buchari

Analytical and Bioanalytical Electrochemistry • 7(6): 657-665

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2014

4 publications

Article 2014 15

Organic solvent-stable lipase from moderate halophilic bacteria Pseudomonas stutzeri isolated from the mud crater of Bleduk Kuwu, Central Java, Indonesia

Parwata, I. Putu, Asyari, Mukhamad, Hertadi, Rukman

Journal of Pure and Applied Microbiology • 8(1): 31-40

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OA

Article 2014 9

Effects of time delay on the dynamics of a kinetic model of a microbial fermentation process

Kasbawati, Gunawan, A.Y., Hertadi, R., Sidarto, K.A.

ANZIAM Journal • 55(4): 336-356

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Conference paper 2014 7

Simple and easy method to synthesize chicken eggshell based Hydroxyapatite

Tri Wahyudi, Setyanto, Utami Dewi, Setia, Anggraeni, Ajeng, Dahlan, Kiagus, Akhmaloka, Ali Zulfikar, Muhammad, Hertadi, Rukman

Advanced Materials Research • 896: 276-279

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Article 2014 13

Isolation and identification of halostable lipase producing bacteria from the Bledug Kuwu mud crater located at Purwodadi-Grobogan, Central Java, Indonesia

Asy'ari, Mukhammad, Parwata, I. Putu, Aditiawati, Pingkan, Akhmaloka, Hertadi, Rukman

Journal of Pure and Applied Microbiology • 8(5): 3387-3396

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2013

2 publications

OA

Article 2013 55

Removal of humic acid from peat water using untreated powdered eggshell as a low cost adsorbent

Zulfikar, M.A., Novita, E., Hertadi, R., Djajanti, S.D.

International Journal of Environmental Science and Technology • 10(6): 1357-1366

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Article 2013 11

Thermostable alkaline lipase isolated from thermus aquaticus

Febriani, Ihsanawat, Hertadi, Rukman, Madayanti, Fida, Akhmaloka

International Journal of Integrative Biology • 14(2): 104-112

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2012

1 publication

OA

Article 2012 6

The role of electrostatic interactions on Klentaq1 insight for domain separation

Nurbaiti, Santi, Martoprawiro, Muhamad A., Akhmaloka, Hertadi, Rukman

Bioinformatics and Biology Insights • 6: 225-234

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2011

2 publications

OA

Article 2011 13

Chemical reactivity of chlorambucil in organic solvents: Influence of 4-chloro butyronitrile nucleophile to voltammogram profiles

Setiyanto, Henry, Saraswaty, Vienna, Hertadi, Rukman, Noviandri, Indra, Buchari, Buchari

International Journal of Electrochemical Science • 6(6): 2090-2100

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Article 2011 6

Cyclic voltammetric study of chlorambucil in the presence of 4-chloro butyronitrile in aqueous solution

Setiyanto, Henry, Saraswaty, Vienna, Hertadi, Rukman, Noviandri, Indra, Buchari, Buchari

International Journal of ChemTech Research • 3(4): 1986-1992

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2010

3 publications

Article 2010 7

Domain motions of Klenow-like DNA polymerase I ITB-1 in the absence of substrate

Nurbaiti, Santi, Nagao, Hidemi, Saito, Hiroaki, Hertadi, Rukman, Martoprawiro, Muhamad A, Akhmaloka

International Journal of Integrative Biology • 9(2): 104-110

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Article 2010 9

Isolation and purification of novel thermostable alkaline lipase from local thermophilic microorganism

Febriani, Hertadi, Rukman, Kahar, Prihardi, Akhmaloka, Madayanti, Fida

Biosciences Biotechnology Research Asia • 7(2): 617-622

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Article 2010 1

Individual domain stability of Klenow-like DNA Pol I ITB-1 based on molecular dynamic simulation

Helwati, Hira, Nurbaiti, Santi, Hertadi, Rukman, Warganegara, Fida Madayanti, Akhmaloka

Biosciences Biotechnology Research Asia • 7(2): 517-528

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2009

2 publications

Article 2009 3

Construction, expression and purification of DNA Pol I ITB1 and its deletion mutants

Helwati, Hira, Hertadi, Rukman, Madayanti, Fida, Akhmaloka

Journal of Pure and Applied Microbiology • 3(2): 393-401

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Article 2009 3

Interface domain interactions on early stage unfolding of DNA polymerase I Klenow fragment

Nurbaiti, Santi, Hertadi, Rukman, Martoprawiro, Muhamad A., Akhmaloka

International Journal of Integrative Biology • 6(1): 46-51

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2004

1 publication

Conference paper 2004

Dynamics of protein extraction and extension by force spectroscopy and molecular dynamics simulation

Ikai, Atsushi, Afrin, Rehana, Hertadi, Rukman, Ohta, Satoko

AIP Conference Proceedings • 708: 291-293

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2003

1 publication

Article 2003 43

Unfolding mechanics of multiple OspA substructures investigated with single molecule force spectroscopy

Hertadi, Rukman, Gruswitz, Franz, Silver, Lin, Koide, Akiko, Koide, Shohei, Arakawa, Hideo, Ikai, Atsushi

Journal of Molecular Biology • 333(5): 993-1002

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2002

1 publication

OA

Article 2002 44

Unfolding mechanics of holo- and apocalmodulin studied by the atomic force microscope

Hertadi, Rukman, Ikai, Atsushi

Protein Science • 11(6): 1532-1538

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No publications found